Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 239 of 332
Found at i:79384675 original size:20 final size:20
Alignment explanation
Indices: 79384500--79384694 Score: 120
Period size: 20 Copynumber: 9.8 Consensus size: 20
79384490 AGATCATTTT
* *
79384500 CACTTTGGTGTCTCTTCTTA
1 CACTTTGGTGCCTCTGCTTA
* *
79384520 CACTTCGGTGCCTCTTCTTA
1 CACTTTGGTGCCTCTGCTTA
* * *
79384540 CACTTTGGTGTCTCTGTTTG
1 CACTTTGGTGCCTCTGCTTA
* * * * *
79384560 CACATTGATGCCTTTGTTTG
1 CACTTTGGTGCCTCTGCTTA
** *
79384580 CACTTCAGTGCCTTTGCTTA
1 CACTTTGGTGCCTCTGCTTA
* * ** *
79384600 CACTTTGGTGTCTTTAATTT
1 CACTTTGGTGCCTCTGCTTA
* * **
79384620 CACTTCGGTGCCTTTATTTA
1 CACTTTGGTGCCTCTGCTTA
*
79384640 CACTTTGATGCCTCTGCTTA
1 CACTTTGGTGCCTCTGCTTA
* * *
79384660 CACTTTGGTGTCTCTGATTT
1 CACTTTGGTGCCTCTGCTTA
**
79384680 CACTTCAGTGCCTCT
1 CACTTTGGTGCCTCT
79384695 ATTTGCACTA
Statistics
Matches: 136, Mismatches: 39, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 136 1.00
ACGTcount: A:0.12, C:0.26, G:0.17, T:0.45
Consensus pattern (20 bp):
CACTTTGGTGCCTCTGCTTA
Found at i:79384712 original size:60 final size:60
Alignment explanation
Indices: 79384526--79384713 Score: 211
Period size: 60 Copynumber: 3.1 Consensus size: 60
79384516 CTTACACTTC
* * * *
79384526 GGTGCCTCTTCTTACACTTTGGTGTCTCTG-TTTGCACATTGA-TGCCTTTGTTTGCACTTCA
1 GGTGCCTCTGCTTACACTTTGGTGTCTCTGATTT-CAC-TTCAGTGCCTTTATTTGCAC-TAA
* * * * * **
79384587 -GTGCCTTTGCTTACACTTTGGTGTCTTTAATTTCACTTCGGTGCCTTTATTTACACTTT
1 GGTGCCTCTGCTTACACTTTGGTGTCTCTGATTTCACTTCAGTGCCTTTATTTGCACTAA
* *
79384646 GATGCCTCTGCTTACACTTTGGTGTCTCTGATTTCACTTCAGTGCCTCTATTTGCACTAA
1 GGTGCCTCTGCTTACACTTTGGTGTCTCTGATTTCACTTCAGTGCCTTTATTTGCACTAA
79384706 GGTGCCTC
1 GGTGCCTC
79384714 CGTATAGCAT
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
59 3 0.03
60 98 0.94
61 3 0.03
ACGTcount: A:0.13, C:0.25, G:0.18, T:0.44
Consensus pattern (60 bp):
GGTGCCTCTGCTTACACTTTGGTGTCTCTGATTTCACTTCAGTGCCTTTATTTGCACTAA
Found at i:79385121 original size:23 final size:23
Alignment explanation
Indices: 79385088--79385133 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
79385078 ATTTAACTAC
*
79385088 GAACTTTCTAAGCTATATAAGCT
1 GAACTTACTAAGCTATATAAGCT
79385111 GAACTTACTAAGCTATATAAGCT
1 GAACTTACTAAGCTATATAAGCT
79385134 TACTCCGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (23 bp):
GAACTTACTAAGCTATATAAGCT
Found at i:79387872 original size:11 final size:11
Alignment explanation
Indices: 79387836--79387877 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
79387826 TAAATATTAC
79387836 TTTATTAATAT
1 TTTATTAATAT
*
79387847 TTTAATGAGATAT
1 TTT-ATTA-ATAT
79387860 TTTATTAATAT
1 TTTATTAATAT
79387871 TTTATTA
1 TTTATTA
79387878 TAAATAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 14 0.52
12 6 0.22
13 7 0.26
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TTTATTAATAT
Found at i:79391632 original size:69 final size:67
Alignment explanation
Indices: 79391511--79391642 Score: 160
Period size: 69 Copynumber: 1.9 Consensus size: 67
79391501 ATAAACAATA
* ** *
79391511 TAATGGTTTTGCCTTTTAACTTAATGAGTAAACATTTATCAAAGCAACGTAG-TTCGCCTTTTAA
1 TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACAACGTAGTTTCGCCTTTTAA
79391575 CT
66 CT
* *
79391577 TAATGGTTTTGACTTTTAACTTTAGAAAATGTAAACATTTATCAAAATAGA-GTAGTTTTGCCTT
1 TAATGGTTTTGACTTTTAAC-TTA-AAAA-GTAAACATTTATCAAAACA-ACGTAGTTTCGCCTT
79391641 TT
62 TT
79391643 TCTTATTCGG
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
66 19 0.35
67 3 0.05
68 2 0.04
69 21 0.38
70 10 0.18
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.42
Consensus pattern (67 bp):
TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACAACGTAGTTTCGCCTTTTAA
CT
Found at i:79398126 original size:13 final size:13
Alignment explanation
Indices: 79398108--79398132 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79398098 TCAATAACAT
79398108 AAAAAAAAAAGAG
1 AAAAAAAAAAGAG
79398121 AAAAAAAAAAGA
1 AAAAAAAAAAGA
79398133 AACAAACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAG
Found at i:79419538 original size:18 final size:18
Alignment explanation
Indices: 79419517--79419585 Score: 54
Period size: 18 Copynumber: 3.8 Consensus size: 18
79419507 TAAAAAGTAA
79419517 TAAAATATTTAAAAATTC
1 TAAAATATTTAAAAATTC
*
79419535 T-AAATTTATTAAAAATT-
1 TAAAATAT-TTAAAAATTC
* *
79419552 GAAAATA-ATAAAAGGATTC
1 TAAAATATTTAAAA--ATTC
79419571 TAATAATATTTAAAA
1 TAA-AATATTTAAAA
79419586 TTATAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
16 5 0.13
17 5 0.13
18 17 0.45
19 2 0.05
20 4 0.11
21 5 0.13
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (18 bp):
TAAAATATTTAAAAATTC
Found at i:79421042 original size:46 final size:45
Alignment explanation
Indices: 79420975--79421141 Score: 210
Period size: 46 Copynumber: 3.6 Consensus size: 45
79420965 AACTTGATGT
* * *
79420975 CATAGTGTCTTTCAACCATGGTCTTATTCATTTTCTGTTGTGAAGC
1 CATAATGTCTTTCAACTATGGTCTTATTCATTTTCTGTTGTGTA-C
* * *
79421021 CACAATGTTTTTCAACTATGGTCTTATTCATTTTCTGTCGTGTTAC
1 CATAATGTCTTTCAACTATGGTCTTATTCATTTTCTGTTGTG-TAC
* *
79421067 CATAATGTCTTTCAACTATAGTCTTATTCATTTTCCGTCATGT-TAC
1 CATAATGTCTTTCAACTATGGTCTTATTCATTTTCTGT--TGTGTAC
*
79421113 CATAGTGTCTTTCAACTATGGTCTTATTC
1 CATAATGTCTTTCAACTATGGTCTTATTC
79421142 GTTTGACTCG
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
46 102 0.97
47 1 0.01
48 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.46
Consensus pattern (45 bp):
CATAATGTCTTTCAACTATGGTCTTATTCATTTTCTGTTGTGTAC
Found at i:79421177 original size:45 final size:44
Alignment explanation
Indices: 79421120--79421277 Score: 172
Period size: 45 Copynumber: 3.5 Consensus size: 44
79421110 TACCATAGTG
* * * * *
79421120 TCTTTCAACTATGGTCTTATTCGTTTGACTCGTGATGACATAACA
1 TCTTTCAGCTATGGTCTTACTCGATAGAATCGTGAT-ACATAACA
* * * *
79421165 TCTTTTAGCTATGGTCTTACTTGATAGAATCGTAATCCCATAACA
1 TCTTTCAGCTATGGTCTTACTCGATAGAATCGTGAT-ACATAACA
* *
79421210 TCTTTCAGCTATGTTCTTACTCGATAGAATCGTGATACCATAACG
1 TCTTTCAGCTATGGTCTTACTCGATAGAATCGTGATA-CATAACA
* *
79421255 TCTTTCAACTATGGTTTTACTCG
1 TCTTTCAGCTATGGTCTTACTCG
79421278 TTTCTGGGTA
Statistics
Matches: 93, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
45 93 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (44 bp):
TCTTTCAGCTATGGTCTTACTCGATAGAATCGTGATACATAACA
Found at i:79423239 original size:25 final size:27
Alignment explanation
Indices: 79423211--79423260 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
79423201 CCATTATTTT
*
79423211 TTTATTTTTTT-ACTA-TTTTAATAAA
1 TTTATTTTTTTCACAATTTTTAATAAA
79423236 TTTATTTTTTTCACAATTTTTAATA
1 TTTATTTTTTTCACAATTTTTAATA
79423261 TTTTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.50
26 3 0.14
27 8 0.36
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (27 bp):
TTTATTTTTTTCACAATTTTTAATAAA
Found at i:79423263 original size:25 final size:24
Alignment explanation
Indices: 79423211--79423267 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
79423201 CCATTATTTT
*
79423211 TTTATTTTTTTACTATTTTAATAAA
1 TTTATTTTTTTACAATTTTAAT-AA
79423236 TTTATTTTTTTCACAATTTTTAAT-A
1 TTTATTTTTTT-ACAA-TTTTAATAA
79423261 TTT-TTTT
1 TTTATTTT
79423268 ATAAATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 4 0.14
25 15 0.52
26 3 0.10
27 7 0.24
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTATTTTTTTACAATTTTAATAA
Found at i:79423635 original size:22 final size:22
Alignment explanation
Indices: 79423610--79423652 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
79423600 AGGGAGTAAA
**
79423610 TTTTATTTGTGTTTAATTCTTT
1 TTTTATTCATGTTTAATTCTTT
*
79423632 TTTTATTCATGTTTATTTCTT
1 TTTTATTCATGTTTAATTCTT
79423653 CAACTTGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (22 bp):
TTTTATTCATGTTTAATTCTTT
Found at i:79431801 original size:43 final size:42
Alignment explanation
Indices: 79431737--79431893 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 42
79431727 TCGTACAATG
* * * *** *
79431737 CCAACGTCCCAAATGTAGTCTTACATGTAATCAAATATCGATG
1 CCAACGTCCCAGACGTGGTCTTACACAAAATCAAATAT-GATA
**
79431780 CCATTGTCCCAGACAG-GGTCTTACACAAAATCAAATATGATA
1 CCAACGTCCCAGAC-GTGGTCTTACACAAAATCAAATATGATA
*
79431822 CCAACGTCCCAGACGTGGTCTTACACATAAATCATAAGTCA--ATG
1 CCAACGTCCCAGACGTGGTCTTACACA-AAATCA-AA-T-ATGATA
* *
79431866 CCAACATCCTAGACGTGGTCTTACACAA
1 CCAACGTCCCAGACGTGGTCTTACACAA
79431894 TAACACATAT
Statistics
Matches: 94, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
42 26 0.28
43 35 0.37
44 30 0.32
45 1 0.01
46 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (42 bp):
CCAACGTCCCAGACGTGGTCTTACACAAAATCAAATATGATA
Found at i:79451723 original size:43 final size:42
Alignment explanation
Indices: 79451606--79451760 Score: 156
Period size: 43 Copynumber: 3.6 Consensus size: 42
79451596 TCGTACAATG
79451606 CCAACGTCCCAGATGTGGTCTTACATGT-AATCAAATATCGAT
1 CCAACGTCCCAGATGTGGTCTTACATGTAAATCAAATA-CGAT
* * *
79451648 GCAATTGTCCTAGATAG-GGTCTTACATG-AAATCAAATACGAT
1 CCAA-CGTCCCAGAT-GTGGTCTTACATGTAAATCAAATACGAT
* *
79451690 ACCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGT-CGAT
1 -CCAACGTCCCAGATGTGGTCTTACATGTAAATCA-AA-TACGAT
* *
79451734 GCCAACATCCTAGATGTGGTCTTACAT
1 -CCAACGTCCCAGATGTGGTCTTACAT
79451761 AATAACACAT
Statistics
Matches: 92, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
41 1 0.01
42 24 0.26
43 37 0.40
44 29 0.32
45 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (42 bp):
CCAACGTCCCAGATGTGGTCTTACATGTAAATCAAATACGAT
Found at i:79463062 original size:16 final size:16
Alignment explanation
Indices: 79463041--79463075 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
79463031 AGTTAAAAAT
*
79463041 TATTTAAATTATATAA
1 TATTTAAATAATATAA
*
79463057 TATTTAAATAATTTAA
1 TATTTAAATAATATAA
79463073 TAT
1 TAT
79463076 AATGATACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TATTTAAATAATATAA
Found at i:79478080 original size:35 final size:35
Alignment explanation
Indices: 79478034--79478104 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
79478024 ATTCATCACT
79478034 ATGCTTCTAATGAGCAATTCTTTTTTTATTCTTTA
1 ATGCTTCTAATGAGCAATTCTTTTTTTATTCTTTA
79478069 ATGCTTCTAATGAGCAATTCTTTTTTTATTCTTTA
1 ATGCTTCTAATGAGCAATTCTTTTTTTATTCTTTA
79478104 A
1 A
79478105 CATTTTTCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.24, C:0.14, G:0.08, T:0.54
Consensus pattern (35 bp):
ATGCTTCTAATGAGCAATTCTTTTTTTATTCTTTA
Found at i:79482855 original size:17 final size:17
Alignment explanation
Indices: 79482833--79482877 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
79482823 ATTAATAATT
*
79482833 TAAAATTTATATTTGCA
1 TAAAATTTATATTTCCA
*
79482850 TAAAATTTACATTTCCA
1 TAAAATTTATATTTCCA
79482867 TAAAAATTTAT
1 T-AAAATTTAT
79482878 TTATATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (17 bp):
TAAAATTTATATTTCCA
Found at i:79482985 original size:11 final size:11
Alignment explanation
Indices: 79482969--79483029 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
79482959 AATAGTTTCA
79482969 TAAAATATAAT
1 TAAAATATAAT
79482980 TAAAATAT-AT
1 TAAAATATAAT
*
79482990 TAACATGA-AAT
1 TAAAAT-ATAAT
*
79483001 TTAAATATAAT
1 TAAAATATAAT
* *
79483012 TCAATATATAAA
1 T-AAAATATAAT
79483024 TAAAAT
1 TAAAAT
79483030 TTAAAAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
10 8 0.21
11 23 0.59
12 8 0.21
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (11 bp):
TAAAATATAAT
Found at i:79483030 original size:29 final size:32
Alignment explanation
Indices: 79482971--79483034 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 32
79482961 TAGTTTCATA
*
79482971 AAATATAATTAAAATATATTAACATGAAATTT
1 AAATATAATTAAAATATATTAACATAAAATTT
*
79483003 AAATATAATT-CAATATA-TAA-ATAAAATTT
1 AAATATAATTAAAATATATTAACATAAAATTT
79483032 AAA
1 AAA
79483035 AAATTTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 11 0.37
30 3 0.10
31 6 0.20
32 10 0.33
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (32 bp):
AAATATAATTAAAATATATTAACATAAAATTT
Found at i:79483404 original size:23 final size:22
Alignment explanation
Indices: 79483378--79483428 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
79483368 CCAAGTCTGT
79483378 AAATATAAAATAAAAATATTTAC
1 AAATATAAAATAAAAATA-TTAC
* * *
79483401 AAATTTAATATAAAAATATTAT
1 AAATATAAAATAAAAATATTAC
79483423 AAATAT
1 AAATAT
79483429 CGGTTAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATATAAAATAAAAATATTAC
Found at i:79483657 original size:27 final size:28
Alignment explanation
Indices: 79483622--79483681 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 28
79483612 TTAAGTTAAT
79483622 ATTATAATT-ATATATATAATTGTCTTA
1 ATTATAATTAATATATATAATTGTCTTA
*
79483649 ATTATAATTAAATATCTATAATTGTCTTA
1 ATTATAATT-AATATATATAATTGTCTTA
79483678 ATTA
1 ATTA
79483682 AGTTAATTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 9 0.30
29 21 0.70
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (28 bp):
ATTATAATTAATATATATAATTGTCTTA
Found at i:79483801 original size:36 final size:35
Alignment explanation
Indices: 79483761--79483841 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 35
79483751 TTGAGCCCGT
79483761 AAATATA-AAATAGGAATATTTACGGAGTTAAAATAA
1 AAATATATAAATA--AATATTTACGGAGTTAAAATAA
*
79483797 AAATATATTGAAGTAAATATTTACGGAGTTAAAATAA
1 AAATATA-T-AAATAAATATTTACGGAGTTAAAATAA
*
79483834 AAACATAT
1 AAATATAT
79483842 TGAAGTACGG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
36 8 0.20
37 28 0.70
39 4 0.10
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.30
Consensus pattern (35 bp):
AAATATATAAATAAATATTTACGGAGTTAAAATAA
Found at i:79483818 original size:37 final size:37
Alignment explanation
Indices: 79483775--79483848 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
79483765 ATAAAATAGG
*
79483775 AATATTTACGGAGTTAAAATAAAAATATATTGAAGTA
1 AATATTTACGGAGTTAAAATAAAAACATATTGAAGTA
79483812 AATATTTACGGAGTTAAAATAAAAACATATTGAAGTA
1 AATATTTACGGAGTTAAAATAAAAACATATTGAAGTA
79483849 CGGTCGAGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.51, C:0.04, G:0.14, T:0.31
Consensus pattern (37 bp):
AATATTTACGGAGTTAAAATAAAAACATATTGAAGTA
Found at i:79488120 original size:50 final size:50
Alignment explanation
Indices: 79488045--79488321 Score: 330
Period size: 50 Copynumber: 5.6 Consensus size: 50
79488035 GTAAGATGCT
* * * *
79488045 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATTGGTGTC
1 GATGCCATGTCCCAAGCATGGTCTTACACTAGCTCTCATATATCGGTGCC
*
79488095 GATGCCATGTCCCAAGCATGGTCTTACACTAGCTCAT-ATATATCGGTGTC
1 GATGCCATGTCCCAAGCATGGTCTTACACTAGCTC-TCATATATCGGTGCC
* * *
79488145 GATGCCATGTCCC-AGACATGGTCTTACACTAGCTTTCATATATCAGTCCC
1 GATGCCATGTCCCAAG-CATGGTCTTACACTAGCTCTCATATATCGGTGCC
* * * * *
79488195 GAAGCCATGTCCTAGGCATGGTCTTACACTGGCTCTCATATACCGGTGCC
1 GATGCCATGTCCCAAGCATGGTCTTACACTAGCTCTCATATATCGGTGCC
* *
79488245 GATGCCATGTCCC-AGACATGGTCTTACACTAGCTTTCAT-TA-CGATGCC
1 GATGCCATGTCCCAAG-CATGGTCTTACACTAGCTCTCATATATCGGTGCC
* * *
79488293 GATGCCATGTTCCAAACATGGTTTTACAC
1 GATGCCATGTCCCAAGCATGGTCTTACAC
79488322 CGACTCACAT
Statistics
Matches: 197, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
48 30 0.15
49 7 0.04
50 158 0.80
51 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (50 bp):
GATGCCATGTCCCAAGCATGGTCTTACACTAGCTCTCATATATCGGTGCC
Found at i:79488463 original size:19 final size:20
Alignment explanation
Indices: 79488436--79488474 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
79488426 AAAATCACAC
*
79488436 ATTCCATAC-AATAACAATT
1 ATTCAATACAAATAACAATT
79488455 ATTCAATACATAATAACAAT
1 ATTCAATACA-AATAACAAT
79488475 ATAATGGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (20 bp):
ATTCAATACAAATAACAATT
Found at i:79489960 original size:6 final size:6
Alignment explanation
Indices: 79489949--79489982 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
79489939 CAAATGGATT
*
79489949 ATTTCC ATTTCC ATTTCC ATTTCT ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
79489983 TTGGAAACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (6 bp):
ATTTCC
Found at i:79493028 original size:69 final size:69
Alignment explanation
Indices: 79492917--79493054 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
79492907 GACTTGAGTG
79492917 GTAAATGTACAATTTAAAGAATAAGTGGATGTTCATGGGCTTGGTTTTATTGAAATTACTGATTA
1 GTAAATGTACAATTTAAAGAATAAGTGGATGTTCATGGGCTTGGTTTTATTGAAATTACTGATTA
79492982 ATGA
66 ATGA
* *
79492986 GTAAATGTACAATTTAAAGAATTAGTGGATGTTCATGGGCTTGGTTTTATTGAAATTATTGATTA
1 GTAAATGTACAATTTAAAGAATAAGTGGATGTTCATGGGCTTGGTTTTATTGAAATTACTGATTA
79493051 ATGA
66 ATGA
79493055 TAAGGGTAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (69 bp):
GTAAATGTACAATTTAAAGAATAAGTGGATGTTCATGGGCTTGGTTTTATTGAAATTACTGATTA
ATGA
Found at i:79496810 original size:46 final size:46
Alignment explanation
Indices: 79496758--79496990 Score: 297
Period size: 46 Copynumber: 5.0 Consensus size: 46
79496748 GTGTGCTCTC
*
79496758 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
* *
79496804 TGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
79496850 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC--G
* * * * *
79496898 ACTGAAAATG-AATGAGTAAGACCATAGTTGAAAGACACTATGGCAACG
1 --TG-ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
** * **
79496946 TGACCTGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
79496991 ATGACAGAAA
Statistics
Matches: 164, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
45 3 0.02
46 121 0.74
48 1 0.01
50 35 0.21
51 4 0.02
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:79496976 original size:96 final size:96
Alignment explanation
Indices: 79496772--79497038 Score: 391
Period size: 96 Copynumber: 2.8 Consensus size: 96
79496762 ATGAAATGTG
* *
79496772 TAAGACCATGGTTGAAAGATACCATGGC-A-ATG--TG-ATATGAAATGTGTAAGACCATAGTTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACTGAAAATG-AATGAGTAAGACCATAGTTG
* * * * **
79496832 AAAGATACCATGGCAACCTGATATGAAATGTG
65 AAAGACACTATGGCAACCTGACATGAAAAGAA
79496864 TAAGACCATGGTTGAAAGATACCATGGCAACATGACTGAAAATGAATGAGTAAGACCATAGTTGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACTGAAAATGAATGAGTAAGACCATAGTTGA
* *
79496929 AAGACACTATGGCAACGTGACCTGAAAAGAA
66 AAGACACTATGGCAACCTGACATGAAAAGAA
*
79496960 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATGAGTAAGACCATAGTTGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACTGAAAATGAATGAGTAAGACCATAGTTGA
79497025 AAGACACTATGGCA
66 AAGACACTATGGCA
79497039 TCATGTCAAA
Statistics
Matches: 159, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
92 28 0.18
93 1 0.01
94 3 0.02
96 123 0.77
97 4 0.03
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (96 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACTGAAAATGAATGAGTAAGACCATAGTTGA
AAGACACTATGGCAACCTGACATGAAAAGAA
Found at i:79497344 original size:23 final size:25
Alignment explanation
Indices: 79497299--79497345 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
79497289 AATAAATATA
*
79497299 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
79497324 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
79497346 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:79502910 original size:503 final size:500
Alignment explanation
Indices: 79501952--79502951 Score: 1463
Period size: 503 Copynumber: 2.0 Consensus size: 500
79501942 ATAACCACGG
** * *
79501952 TTATCCTAGTGGCACCTAAGGTTATACTCTAAACTGAATAATTTCCCATCAATATACTATTTAGT
1 TTATCCTAGTGGCACCTAACCTTATAATCTAAACTAAATAATTTCCCATCAATATACTATTTAGT
** * *
79502017 CAATTCTCAATCGAAAAATAACGATTGGTGGGTACTTGATAGACAAGTGTCTCTAGCGAATAATC
66 CAATTCTCAATCGAAAAATAACGATTGGCAGGTACTTGATAGACAAGTGTCTCTAACGAACAATC
* *
79502082 CCGTCTTTCAGGATAACAAAGGGTTTTAGAAAGAAAAAAAACATGTCAGAAACCGACAGGTGTCA
131 CCGCCTTTCAGGATAACAAAGGGTTTT--AAAGAAAAAAAACATGTCAGAAACAGACAGGTGTCA
79502147 AAAATAGATTTGAGGACTTGAACAATTTATTAAAAATTTGAAATCCAAGCTTCCCTTAGACATTT
194 AAAATAGATTTGAGGACTTGAACAATTTATTAAAAATTTGAAATCCAAGCTTCCCTTAGACATTT
* * *
79502212 AACTATTTAAATCAAGATGTAGAGATAGATAATCCTTTCCTCTAAGATCCTCCTTTCCCCCTAAA
259 AACAATGTAAATCAAGATGTAGAGATAGATAATCCTTTCATCTAAGATCCTCCTTTCCCCCTAAA
*
79502277 TTTTCTTTATCGCTTAATCTTCTGCTTAGACCTTAAGTTTCCTTTTTCCTCTATTTTTCTTCTTT
324 TTTTCTTTATCGCTTAATCTTCTACTTAGACCTTAAGTTTCCTTTTTCCTCTATTTTTCTTCTTT
** * * *
79502342 CAATTTTGTTATCAGAGCTTATTTTTCCCTTTTAGAATTAACCAACCCTAAGGTAAATCTTCTTT
389 CAATTTCATTATCAGAGCTTATTTTTCCCTTTCAGAATTAACCAACCCCAAGGTAAATATTCTTT
79502407 CTTCCTTTCATGTTTCTTATTTCA-ATATCAACATGTCTAGGATAGTGA
454 CTTCCTTT-ATGTTTCTT-TTTCATATATCAACATGTCTAGGATAGTGA
*
79502455 TTATCCTAGTGGCACCTAACCTTATAATCTAAACTAAATAATTTCTCATCAATATACTATTTAGT
1 TTATCCTAGTGGCACCTAACCTTATAATCTAAACTAAATAATTTCCCATCAATATACTATTTAGT
** * * * *
79502520 TTATTCTCAATCGACAAATAATGATTGGCAGGTACTTGATAGACAAGTGTCTCTAATGGACAATC
66 CAATTCTCAATCGAAAAATAACGATTGGCAGGTACTTGATAGACAAGTGTCTCTAACGAACAATC
* * ** * ** *
79502585 CTGCCTTTC-GAGATAACAAAGGG-TTT-CAGAAAAAAAATGTTTCTTAAACTAG-CAGGTGTTA
131 CCGCCTTTCAG-GATAACAAAGGGTTTTAAAGAAAAAAAACATGTCAGAAAC-AGACAGGTGTCA
* * *
79502646 AAAATAGATTTGAGGACTTGTACAATTTATTACAAATTTTAAATCCAAGCTTCCCTTAGACATTT
194 AAAATAGATTTGAGGACTTGAACAATTTATTAAAAATTTGAAATCCAAGCTTCCCTTAGACATTT
* * *
79502711 AACAATGTAAATCGAGATGTAGAGATAGGTAATCCTTTCATCTAATATCCTCC-TTCCCCCTCCC
259 AACAATGTAAATCAAGATGTAGAGATAGATAATCCTTTCATCTAAGATCCTCCTTTCCCCCT---
*
79502775 CCAAATTTTTTTTATCGCTTAATCTTCTACTTAGACCTTAAGTTTCCTTTTTCCTCTATTTTTCT
321 --AAATTTTCTTTATCGCTTAATCTTCTACTTAGACCTTAAGTTTCCTTTTTCCTCTATTTTTCT
* *
79502840 TCTTTCAATTTCATTATCAGAGCTTATTTTTCCCTTTCAGCATTAACCAACCCCAAGTTAAATAT
384 TCTTTCAATTTCATTATCAGAGCTTATTTTTCCCTTTCAGAATTAACCAACCCCAAGGTAAATAT
*
79502905 TCTTTCTTCCTTTATGTTTCTTTTTTATATATCAACATGTCTAGGAT
449 TCTTTCTTCCTTTATGTTTCTTTTTCATATATCAACATGTCTAGGAT
79502952 CGCACCTATG
Statistics
Matches: 445, Mismatches: 44, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
498 8 0.02
499 134 0.30
500 1 0.00
501 4 0.01
502 32 0.07
503 266 0.60
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (500 bp):
TTATCCTAGTGGCACCTAACCTTATAATCTAAACTAAATAATTTCCCATCAATATACTATTTAGT
CAATTCTCAATCGAAAAATAACGATTGGCAGGTACTTGATAGACAAGTGTCTCTAACGAACAATC
CCGCCTTTCAGGATAACAAAGGGTTTTAAAGAAAAAAAACATGTCAGAAACAGACAGGTGTCAAA
AATAGATTTGAGGACTTGAACAATTTATTAAAAATTTGAAATCCAAGCTTCCCTTAGACATTTAA
CAATGTAAATCAAGATGTAGAGATAGATAATCCTTTCATCTAAGATCCTCCTTTCCCCCTAAATT
TTCTTTATCGCTTAATCTTCTACTTAGACCTTAAGTTTCCTTTTTCCTCTATTTTTCTTCTTTCA
ATTTCATTATCAGAGCTTATTTTTCCCTTTCAGAATTAACCAACCCCAAGGTAAATATTCTTTCT
TCCTTTATGTTTCTTTTTCATATATCAACATGTCTAGGATAGTGA
Found at i:79521783 original size:49 final size:49
Alignment explanation
Indices: 79521617--79521841 Score: 315
Period size: 49 Copynumber: 4.5 Consensus size: 49
79521607 TGAGGTTGCA
* * * * *
79521617 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
79521668 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
*
79521718 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
79521767 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
79521816 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
79521842 TGCGTACCAG
Statistics
Matches: 157, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
49 80 0.51
50 44 0.28
51 33 0.21
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:79521792 original size:99 final size:100
Alignment explanation
Indices: 79521615--79521841 Score: 323
Period size: 99 Copynumber: 2.3 Consensus size: 100
79521605 TATGAGGTTG
**
79521615 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACACGTACCCGAAAACTGTGATCACGTGTGTAGTACTA
* **
79521680 AGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
66 AGTGCAGGCTACTACGTGTACCAGATAATT-GGTCA
* * * * *
79521716 CGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAA-T-TGGTCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACACGTACCCGAAAACTGTGATCACGTGTGTAGTACTA
*
79521779 AGTGCAGGCTACTACGTGTACCGGATAATTGGTCA
66 AGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
*
79521814 CATGTGTAGTACTATGTGCAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
79521842 TGCGTACCAG
Statistics
Matches: 113, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
98 31 0.27
99 45 0.40
100 1 0.01
101 36 0.32
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACACGTACCCGAAAACTGTGATCACGTGTGTAGTACTA
AGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
Found at i:79526921 original size:30 final size:30
Alignment explanation
Indices: 79526877--79526981 Score: 185
Period size: 30 Copynumber: 3.5 Consensus size: 30
79526867 TACATTGTAT
79526877 AAGGTATG-TATGTAATTGAAAATGATTAG
1 AAGGTATGATATGTAATTGAAAATGATTAG
*
79526906 AAGGTATGATATGTAATTGTAAATGATTAG
1 AAGGTATGATATGTAATTGAAAATGATTAG
*
79526936 AAGGTATGATATGTAATTGGAAATGATTAG
1 AAGGTATGATATGTAATTGAAAATGATTAG
79526966 AAGGTATGATATGTAA
1 AAGGTATGATATGTAA
79526982 CTATGAATGA
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 8 0.11
30 65 0.89
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (30 bp):
AAGGTATGATATGTAATTGAAAATGATTAG
Found at i:79526991 original size:30 final size:29
Alignment explanation
Indices: 79526877--79526994 Score: 177
Period size: 30 Copynumber: 4.0 Consensus size: 29
79526867 TACATTGTAT
79526877 AAGGTATG-TATGTAATTGAAAATGATTAG
1 AAGGTATGATATGTAATTG-AAATGATTAG
79526906 AAGGTATGATATGTAATTGTAAATGATTAG
1 AAGGTATGATATGTAATTG-AAATGATTAG
79526936 AAGGTATGATATGTAATTGGAAATGATTAG
1 AAGGTATGATATGTAATT-GAAATGATTAG
79526966 AAGGTATGATATGTAACTATG-AATGATTA
1 AAGGTATGATATGTAA-T-TGAAATGATTA
79526995 TAGGGTTGAA
Statistics
Matches: 84, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
29 8 0.10
30 72 0.86
31 3 0.04
32 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.24, T:0.35
Consensus pattern (29 bp):
AAGGTATGATATGTAATTGAAATGATTAG
Found at i:79529438 original size:17 final size:18
Alignment explanation
Indices: 79529402--79529441 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
79529392 CCAATAAGTG
79529402 ACACGCTCATGTAGGCCC
1 ACACGCTCATGTAGGCCC
* *
79529420 ACACGCTCGTGT-TGCCC
1 ACACGCTCATGTAGGCCC
79529437 ACACG
1 ACACG
79529442 GCCACACTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.20, C:0.40, G:0.23, T:0.17
Consensus pattern (18 bp):
ACACGCTCATGTAGGCCC
Found at i:79530105 original size:3 final size:3
Alignment explanation
Indices: 79530097--79530156 Score: 79
Period size: 3 Copynumber: 20.3 Consensus size: 3
79530087 AAACAAATAT
*
79530097 TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
*
79530142 CTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA T
79530157 GGAATAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.08
3 45 0.90
4 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:79530761 original size:18 final size:18
Alignment explanation
Indices: 79530740--79530788 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
79530730 TTTCAAGATA
*
79530740 GAATTGAAAAAG-GGGATT
1 GAATTG-AAAAGTAGGATT
*
79530758 GAATTGTAAAGTAGGATT
1 GAATTGAAAAGTAGGATT
*
79530776 GAATTGTAAAGTA
1 GAATTGAAAAGTA
79530789 AGTTATTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.14
18 24 0.86
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (18 bp):
GAATTGAAAAGTAGGATT
Found at i:79531441 original size:21 final size:21
Alignment explanation
Indices: 79531415--79531496 Score: 85
Period size: 21 Copynumber: 3.9 Consensus size: 21
79531405 CGACTTTGCC
*
79531415 TATCAGGCACTTTATGTGTCA
1 TATCAGGCACCTTATGTGTCA
* *
79531436 TATCAGACACCTTGTGTGTCA
1 TATCAGGCACCTTATGTGTCA
*
79531457 TAAT-AGGCACCTCATGTGTCA
1 T-ATCAGGCACCTTATGTGTCA
* * *
79531478 TTTTAGGCACTTTATGTGT
1 TATCAGGCACCTTATGTGT
79531497 TGTATACTGC
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
20 1 0.02
21 47 0.94
22 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (21 bp):
TATCAGGCACCTTATGTGTCA
Found at i:79532358 original size:22 final size:22
Alignment explanation
Indices: 79532308--79532358 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
79532298 TATTTAAAGG
79532308 TGAA-TTGGATTGGTTGTGATT
1 TGAATTTGGATTGGTTGTGATT
***
79532329 TTTGTTTGGATTGGTCT-TGATT
1 TGAATTTGGATTGGT-TGTGATT
79532351 TGAATTTG
1 TGAATTTG
79532359 CAGGGAAGGT
Statistics
Matches: 22, Mismatches: 6, Indels: 3
0.71 0.19 0.10
Matches are distributed among these distances:
21 1 0.05
22 20 0.91
23 1 0.05
ACGTcount: A:0.16, C:0.02, G:0.29, T:0.53
Consensus pattern (22 bp):
TGAATTTGGATTGGTTGTGATT
Found at i:79536884 original size:30 final size:30
Alignment explanation
Indices: 79536827--79536884 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
79536817 CACGGCCATG
* *
79536827 ACACACGGGCGTGTGGTTTATCCGTGTGTC
1 ACACACGGGCGTGTGGATCATCCGTGTGTC
79536857 ACACACGGGCGTGTGGATCA-CCTGTGTG
1 ACACACGGGCGTGTGGATCATCC-GTGTG
79536885 GAAGTGCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.16, C:0.24, G:0.34, T:0.26
Consensus pattern (30 bp):
ACACACGGGCGTGTGGATCATCCGTGTGTC
Found at i:79538755 original size:29 final size:29
Alignment explanation
Indices: 79538689--79538757 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
79538679 TAAATCTTCA
*
79538689 AAAATAAAGAAGAGAAAATAAAATTTAAAT
1 AAAATAAA-AAGAGAAAATAAAATTCAAAT
* *
79538719 AAAGATAAAAATA-AAAATAAAATTCATAGT
1 AAA-ATAAAAAGAGAAAATAAAATTCA-AAT
79538749 AAAATAAAA
1 AAAATAAAA
79538758 GGACTCAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 18 0.53
30 11 0.32
31 5 0.15
ACGTcount: A:0.71, C:0.01, G:0.07, T:0.20
Consensus pattern (29 bp):
AAAATAAAAAGAGAAAATAAAATTCAAAT
Found at i:79541230 original size:18 final size:18
Alignment explanation
Indices: 79541207--79541246 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
79541197 GCCTCTCGAG
79541207 AAGTGCTATTTACCTTAA
1 AAGTGCTATTTACCTTAA
79541225 AAGTGCTATTTACCTTAA
1 AAGTGCTATTTACCTTAA
79541243 AAGT
1 AAGT
79541247 TTCAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (18 bp):
AAGTGCTATTTACCTTAA
Found at i:79543870 original size:19 final size:19
Alignment explanation
Indices: 79543842--79543878 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
79543832 ACCTATCAAA
79543842 AGTAAATAAAATAAAATTT
1 AGTAAATAAAATAAAATTT
*
79543861 AGTAATTAAAATAAAATT
1 AGTAAATAAAATAAAATT
79543879 AAATTGCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AGTAAATAAAATAAAATTT
Found at i:79554511 original size:20 final size:19
Alignment explanation
Indices: 79554488--79554534 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 19
79554478 ATAAAAAATA
79554488 TTAAAAATG-GTAAACATTAT
1 TTAAAAATGTG-AAA-ATTAT
79554508 TTAAAAATGTGAAAATTAT
1 TTAAAAATGTGAAAATTAT
79554527 TTAAAAAT
1 TTAAAAAT
79554535 AATATTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.50
20 12 0.46
21 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (19 bp):
TTAAAAATGTGAAAATTAT
Found at i:79554553 original size:30 final size:29
Alignment explanation
Indices: 79554519--79554592 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
79554509 TAAAAATGTG
*
79554519 AAAATTATTTAA-AAATAATATTTTTATTT
1 AAAAATATTTAATAAATAATATTTTTA-TT
* **
79554548 AAAAATAATTAATATTTAATATTTTTATT
1 AAAAATATTTAATAAATAATATTTTTATT
79554577 AAAAAATATTTAATAA
1 -AAAAATATTTAATAA
79554593 TTATTGTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 12 0.32
30 25 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
AAAAATATTTAATAAATAATATTTTTATT
Found at i:79554602 original size:23 final size:23
Alignment explanation
Indices: 79554558--79554602 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
79554548 AAAAATAATT
* *
79554558 AATATTTAATATTTTTATTAAAA
1 AATATTTAATATTATTAGTAAAA
79554581 AATATTTAATAATTATT-GTAAA
1 AATATTTAAT-ATTATTAGTAAA
79554603 TTTATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
AATATTTAATATTATTAGTAAAA
Found at i:79554612 original size:10 final size:10
Alignment explanation
Indices: 79554572--79554651 Score: 56
Period size: 10 Copynumber: 7.8 Consensus size: 10
79554562 TTTAATATTT
*
79554572 TTATTAAAAA
1 TTATTTAAAA
*
79554582 ATATTTAATAA
1 TTATTTAA-AA
*
79554593 TTATTGTAAAT
1 TTATT-TAAAA
79554604 TTATTTAAAAA
1 TTATTT-AAAA
*
79554615 TTA-ATAAAA
1 TTATTTAAAA
*
79554624 TTATTAAAAA
1 TTATTTAAAA
*
79554634 TT-TGTAAAAA
1 TTAT-TTAAAA
79554644 TTATTTAA
1 TTATTTAA
79554652 GTTATAAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
9 8 0.15
10 25 0.45
11 19 0.35
12 3 0.05
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (10 bp):
TTATTTAAAA
Found at i:79554656 original size:29 final size:28
Alignment explanation
Indices: 79554609--79554671 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
79554599 TAAATTTATT
* *
79554609 TAAAAATTAATAAAATTATTAAAAATTTG
1 TAAAAATTAATAAAATTA-TAAAAATATA
* * *
79554638 TAAAAATTATTTAAGTTATAAAAATATA
1 TAAAAATTAATAAAATTATAAAAATATA
79554666 TAAAAA
1 TAAAAA
79554672 ATTTAAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (28 bp):
TAAAAATTAATAAAATTATAAAAATATA
Found at i:79557198 original size:26 final size:27
Alignment explanation
Indices: 79557169--79557219 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
79557159 TTTTAGTTCT
*
79557169 TTTATATATTTATACTT-TTTTATAAG
1 TTTATAAATTTATACTTCTTTTATAAG
*
79557195 TTTATAAATTTATAGTTCTTTTATA
1 TTTATAAATTTATACTTCTTTTATA
79557220 TTTTTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (27 bp):
TTTATAAATTTATACTTCTTTTATAAG
Found at i:79557330 original size:8 final size:8
Alignment explanation
Indices: 79557292--79557364 Score: 58
Period size: 8 Copynumber: 8.8 Consensus size: 8
79557282 TACTATAAGC
79557292 TTTTTATA
1 TTTTTATA
79557300 TAATTTTA-A
1 T--TTTTATA
*
79557309 TTGTATATA
1 TT-TTTATA
*
79557318 CTTTTATA
1 TTTTTATA
79557326 TTTTTATA
1 TTTTTATA
**
79557334 AATTTATA
1 TTTTTATA
*
79557342 ATTTTATA
1 TTTTTATA
79557350 TTTTATATA
1 TTTT-TATA
79557359 TTTTTA
1 TTTTTA
79557365 AAATAATAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
7 1 0.02
8 34 0.65
9 12 0.23
10 5 0.10
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (8 bp):
TTTTTATA
Found at i:79557374 original size:31 final size:32
Alignment explanation
Indices: 79557314--79557374 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
79557304 TTTAATTGTA
* *
79557314 TATACTTTTATATTTTTATAAATTTATAATTT
1 TATACTTTTATATTTTTATAAAATAATAATTT
79557346 TATA-TTTTATATATTTT-TAAAATAATAAT
1 TATACTTTTATAT-TTTTATAAAATAATAAT
79557375 AACCTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (32 bp):
TATACTTTTATATTTTTATAAAATAATAATTT
Found at i:79562275 original size:13 final size:13
Alignment explanation
Indices: 79562257--79562282 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79562247 AATAATTAAG
79562257 TATATTATATTAT
1 TATATTATATTAT
79562270 TATATTATATTAT
1 TATATTATATTAT
79562283 AAAAGAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATATTATATTAT
Found at i:79563109 original size:40 final size:40
Alignment explanation
Indices: 79563065--79563145 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
79563055 AATTATGGGA
* ** *
79563065 TACTGAATATTGTTTTGAATACTGAATTGAACTGTGAAAT
1 TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
* * *
79563105 TACTGAATAATGTTACGTATATTGCATTGAACTGTAAAAT
1 TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
79563145 T
1 T
79563146 TCTAATGAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (40 bp):
TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
Found at i:79563410 original size:45 final size:45
Alignment explanation
Indices: 79563357--79563462 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
79563347 CGACTACTGT
*
79563357 TACTGTTACCGTTACTGTTATC-GATT-TGACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTA-CAGATTCAG-CACTTTGTGTGTCGAA
* * *
79563402 TATTGTTACCATTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
*
79563447 TACTG-TACTGTTACTG
1 TACTGTTACCGTTACTG
79563463 CTACTAATAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
44 10 0.19
45 41 0.79
46 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:79564233 original size:11 final size:11
Alignment explanation
Indices: 79564217--79564242 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
79564207 AATTTATAAA
79564217 AAAATAAAAAT
1 AAAATAAAAAT
79564228 AAAATAAAAAT
1 AAAATAAAAAT
79564239 AAAA
1 AAAA
79564243 AATAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:79564236 original size:18 final size:18
Alignment explanation
Indices: 79564216--79564249 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
79564206 AAATTTATAA
79564216 AAAAAT-AAAAATAAAAT
1 AAAAATAAAAAATAAAAT
79564233 AAAAATAAAAAATAAAA
1 AAAAATAAAAAATAAAA
79564250 AAAGTTGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAAATAAAAAATAAAAT
Found at i:79564251 original size:7 final size:6
Alignment explanation
Indices: 79564216--79564250 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
79564206 AAATTTATAA
79564216 AAAAAT AAAAAT -AAAAT AAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
79564251 AAGTTGGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:79565053 original size:41 final size:41
Alignment explanation
Indices: 79564974--79565114 Score: 142
Period size: 41 Copynumber: 3.3 Consensus size: 41
79564964 TCCCAGAGGT
* *
79564974 GGTCTTACATGCAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACG-AATCAAATATCGATGCCA-TGTCCCAGACAG
*
79565017 GGTCTTACACGAATCAAATA-CGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAATCAAATATCGATGCC-ATGTCCCAGACAG
* * *
79565058 GGTCTTACACATAATCACATATATCGATGTCAACGTCCCAGAC-G
1 GGTCTTACAC-GAATCA-A-ATATCGATG-CCATGTCCCAGACAG
79565102 TGGTCTTACACGA
1 -GGTCTTACACGA
79565115 GAACGCATAT
Statistics
Matches: 83, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
41 28 0.34
42 14 0.17
43 11 0.13
44 4 0.05
45 25 0.30
46 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (41 bp):
GGTCTTACACGAATCAAATATCGATGCCATGTCCCAGACAG
Found at i:79565124 original size:45 final size:41
Alignment explanation
Indices: 79564959--79565114 Score: 145
Period size: 45 Copynumber: 3.7 Consensus size: 41
79564949 CGTACAATGC
* * *
79564959 CAACGTCCCAGAGGTGGTCTTACATGCAATCACATATCGATG
1 CAACGTCCCAGACGTGGTCTTACACG-AATCATATATCGATG
* *
79565001 CCACTGTCCCAGACAG-GGTCTTACACGAATCAAATA-CGATG
1 CAAC-GTCCCAGAC-GTGGTCTTACACGAATCATATATCGATG
* * * *
79565042 CCGATGTCCCAGACATGGTCTTACACATAATCACATATATCGATG
1 -CAACGTCCCAGACGTGGTCTTACAC-GAAT--CATATATCGATG
79565087 TCAACGTCCCAGACGTGGTCTTACACGA
1 -CAACGTCCCAGACGTGGTCTTACACGA
79565115 GAACGCATAT
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
41 24 0.26
42 16 0.17
43 18 0.20
44 7 0.08
45 27 0.29
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (41 bp):
CAACGTCCCAGACGTGGTCTTACACGAATCATATATCGATG
Found at i:79567993 original size:21 final size:21
Alignment explanation
Indices: 79567969--79568035 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
79567959 CTACTCTGCT
* * *
79567969 CTGCCTCCTTCGCTGTTGCCT
1 CTGCCTCCCTCGCTGCTGCCG
* *
79567990 CTGCCTCCCTCACTGCTACCG
1 CTGCCTCCCTCGCTGCTGCCG
79568011 CTGCCTCCCTCGCTGCTGCCG
1 CTGCCTCCCTCGCTGCTGCCG
79568032 CTGC
1 CTGC
79568036 TCTAACTTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.03, C:0.49, G:0.19, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCTGCCG
Found at i:79584734 original size:43 final size:43
Alignment explanation
Indices: 79584680--79584850 Score: 149
Period size: 41 Copynumber: 4.0 Consensus size: 43
79584670 ATATCGTACA
* *
79584680 ATGCCAA-TGTCCCAGACGTGGTCGTACATGCAGTCACATATCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACATG-AATCACATATCG
*
79584723 ATGCC-ACTGTCCCAGACAG-GGTCTTACATGAATCAAATA-CG
1 ATGCCAACTGTCCCAGAC-GTGGTCTTACATGAATCACATATCG
* * * *
79584764 ATGCCGA-TGTCCTAGACATGGTCTTACACGTAATCACATATATCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACATG-AATCAC--ATATCG
* * *
79584809 ATGCCAACT-TCCCA-TCGTGGTCTTACACGAGAACACATATCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACATGA-ATCACATATCG
79584851 GAAATCCTAT
Statistics
Matches: 106, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
41 26 0.25
42 20 0.19
43 26 0.25
44 21 0.20
45 12 0.11
46 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACGTGGTCTTACATGAATCACATATCG
Found at i:79595278 original size:14 final size:14
Alignment explanation
Indices: 79595259--79595285 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
79595249 GAATCCTATA
79595259 TCATGACATATGTG
1 TCATGACATATGTG
79595273 TCATGACATATGT
1 TCATGACATATGT
79595286 ATCTTAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (14 bp):
TCATGACATATGTG
Found at i:79600243 original size:26 final size:26
Alignment explanation
Indices: 79600206--79600263 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
79600196 TGATACAAAT
79600206 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
79600232 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
79600258 TGATAA
1 TGATAA
79600264 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:79608251 original size:40 final size:40
Alignment explanation
Indices: 79608191--79608374 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
79608181 TATTCGAATG
*
79608191 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* *
79608231 ATATCCGGACTAAGATCCGAAGGCATTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCT-AG-TGACT
* * * *
79608271 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
79608311 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
79608351 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
79608375 CTTGTGCGAG
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 2 0.02
40 118 0.95
41 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:79608324 original size:80 final size:80
Alignment explanation
Indices: 79608191--79608410 Score: 272
Period size: 80 Copynumber: 2.8 Consensus size: 80
79608181 TATTCGAATG
* * * *
79608191 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
* *
79608255 ATTTGTG-TGAGTTG-CT
65 ATTTATGCT-AG-TGACC
*
79608271 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAG-TCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
79608335 ATTTATGCTAGTGACC
65 ATTTATGCTAGTGACC
* * *
79608351 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAG
79608411 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
78 14 0.11
79 20 0.16
80 89 0.72
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGCA
TTTATGCTAGTGACC
Found at i:79610162 original size:10 final size:10
Alignment explanation
Indices: 79610147--79610174 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
79610137 GGCAACTGAC
79610147 CAAATAAGGT
1 CAAATAAGGT
79610157 CAAATAAGGT
1 CAAATAAGGT
79610167 CAAATAAG
1 CAAATAAG
79610175 CCCTCAGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.18, T:0.18
Consensus pattern (10 bp):
CAAATAAGGT
Found at i:79616409 original size:40 final size:40
Alignment explanation
Indices: 79616349--79616532 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
79616339 TATTCGAATG
*
79616349 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * *
79616389 ATATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
79616429 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* *
79616469 ATATCCGGGTTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* *
79616509 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
79616533 CTTGTGCGAG
Statistics
Matches: 119, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 115 0.97
41 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:79616489 original size:80 final size:79
Alignment explanation
Indices: 79616349--79616568 Score: 241
Period size: 80 Copynumber: 2.8 Consensus size: 79
79616339 TATTCGAATG
* * *
79616349 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGACTAAGATCCGAAGGCA
* *
79616414 TTTGTACGAGTTG-CT
65 TTTATACGAG-TGACC
* **
79616429 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGTTAAG-TCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGACTAAGAT-CCGAAGGC
* *
79616493 ATTTATGCTAGTGACC
64 ATTTATACGAGTGACC
* * * *
79616509 ACATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCCGG-CTAA-ATCCAGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGACTAAGATCC-GAAG
79616569 ATACTTGGGT
Statistics
Matches: 119, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
77 2 0.02
78 8 0.07
79 22 0.18
80 87 0.73
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGACTAAGATCCGAAGGCAT
TTATACGAGTGACC
Found at i:79620331 original size:124 final size:124
Alignment explanation
Indices: 79620111--79620360 Score: 491
Period size: 124 Copynumber: 2.0 Consensus size: 124
79620101 ACCATAACGT
79620111 CTGGGCCGGGTTTGGGGTGCTACATATTCAAGCATATGAATTCATTAAAAATTGCTATAAAGTCA
1 CTGGGCCGGGTTTGGGGTGCTACATATTCAAGCATATGAATTCATTAAAAATTGCTATAAAGTCA
*
79620176 TTCTAAGTTAGTTTAGAACATGCTAGAACTTAAAAGCCACCTTAGGAAAATTTTCTGCA
66 TTCTAAGTTAGTTTAGAACATGCTAGAACTTAAAAGCCACCTTAGGAAAATTTTCTACA
79620235 CTGGGCCGGGTTTGGGGTGCTACATATTCAAGCATATGAATTCATTAAAAATTGCTATAAAGTCA
1 CTGGGCCGGGTTTGGGGTGCTACATATTCAAGCATATGAATTCATTAAAAATTGCTATAAAGTCA
79620300 TTCTAAGTTAGTTTAGAACATGCTAGAACTTAAAAGCCACCTTAGGAAAATTTTCTACA
66 TTCTAAGTTAGTTTAGAACATGCTAGAACTTAAAAGCCACCTTAGGAAAATTTTCTACA
79620359 CT
1 CT
79620361 TTGGAAAATA
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 125 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (124 bp):
CTGGGCCGGGTTTGGGGTGCTACATATTCAAGCATATGAATTCATTAAAAATTGCTATAAAGTCA
TTCTAAGTTAGTTTAGAACATGCTAGAACTTAAAAGCCACCTTAGGAAAATTTTCTACA
Found at i:79620428 original size:20 final size:21
Alignment explanation
Indices: 79620405--79620460 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
79620395 GATACTATTT
79620405 TATCGATACTTT-TTGAAAAA-
1 TATCGATA-TTTATTGAAAAAG
* *
79620425 TATCAATATTTATTTAAAAAG
1 TATCGATATTTATTGAAAAAG
*
79620446 TATCGATATTCATTG
1 TATCGATATTTATTG
79620461 TATTTTAAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.10
20 14 0.48
21 12 0.41
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (21 bp):
TATCGATATTTATTGAAAAAG
Found at i:79624084 original size:12 final size:12
Alignment explanation
Indices: 79624069--79624093 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79624059 TAACATTTTT
79624069 TATTTGTTTTAA
1 TATTTGTTTTAA
79624081 TATTTGTTTTAA
1 TATTTGTTTTAA
79624093 T
1 T
79624094 GTTTTTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TATTTGTTTTAA
Found at i:79624115 original size:24 final size:24
Alignment explanation
Indices: 79624081--79624142 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
79624071 TTTGTTTTAA
* *
79624081 TATTTGTTTTAATGT-TTTTAAAT
1 TATTTGATTTAATATATTTTAAAT
*
79624104 GTATTTGATTTATTATATTTTAAAT
1 -TATTTGATTTAATATATTTTAAAT
* *
79624129 TTTTTTATTTAATA
1 TATTTGATTTAATA
79624143 AAATAAGCTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
24 23 0.74
25 8 0.26
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
TATTTGATTTAATATATTTTAAAT
Found at i:79625186 original size:36 final size:36
Alignment explanation
Indices: 79625146--79625215 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
79625136 ACATTATCAT
* *
79625146 AAATATAATAAATGTTTTATTATATTAAAAATAAAA
1 AAATATAAAAAATATTTTATTATATTAAAAATAAAA
* *
79625182 AAATATAAAAAATATTTTATTGTATTAAATATAA
1 AAATATAAAAAATATTTTATTATATTAAAAATAA
79625216 TTTTTTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (36 bp):
AAATATAAAAAATATTTTATTATATTAAAAATAAAA
Found at i:79625375 original size:18 final size:18
Alignment explanation
Indices: 79625331--79625377 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
79625321 TATAAATATA
79625331 AATATAA-ATATATAATT
1 AATATAACATATATAATT
*
79625348 ATTATTTAACATATATAATT
1 A--ATATAACATATATAATT
79625368 AATATAACAT
1 AATATAACAT
79625378 TTTTTATAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 1 0.04
18 8 0.32
19 5 0.20
20 11 0.44
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATAACATATATAATT
Found at i:79626402 original size:1 final size:1
Alignment explanation
Indices: 79626396--79626439 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
79626386 CTCTTTCCTC
* * * *
79626396 AAAAAAAAAAAAGAAAAAAAGAAAAAAAAAAGAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
79626440 GAAGATAAGC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:79626422 original size:19 final size:19
Alignment explanation
Indices: 79626398--79626439 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
79626388 CTTTCCTCAA
79626398 AAAAAAAAAAGAAAAAAAG
1 AAAAAAAAAAGAAAAAAAG
79626417 AAAAAAAAAAGAAAAAAAG
1 AAAAAAAAAAGAAAAAAAG
79626436 AAAA
1 AAAA
79626440 GAAGATAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAGAAAAAAAG
Found at i:79630089 original size:22 final size:23
Alignment explanation
Indices: 79630050--79630092 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
79630040 TCAAAATTTA
* *
79630050 TATAAAAATATAATTGATGAATC
1 TATAAAAATAAAAATGATGAATC
79630073 TATAAAAA-AAAAATGATGAA
1 TATAAAAATAAAAATGATGAA
79630093 CAAAACTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (23 bp):
TATAAAAATAAAAATGATGAATC
Found at i:79631593 original size:58 final size:58
Alignment explanation
Indices: 79631530--79631652 Score: 176
Period size: 58 Copynumber: 2.1 Consensus size: 58
79631520 TTGTAATAAG
* * * *
79631530 ATTATTATTAAATATATTTTAATAAAAATAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATATAATTTAAT-AAAATAACAAATAATTTAATAACATTCTTAACATA
* *
79631588 ATTATTATTAAATATAATTTAATAAAATAACATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAATAACAAATAATTTAATAACATTCTTAACATA
79631646 ATTATTA
1 ATTATTA
79631653 GTATATGAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 22 0.38
58 36 0.62
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (58 bp):
ATTATTATTAAATATAATTTAATAAAATAACAAATAATTTAATAACATTCTTAACATA
Found at i:79631680 original size:57 final size:56
Alignment explanation
Indices: 79631530--79631680 Score: 139
Period size: 58 Copynumber: 2.6 Consensus size: 56
79631520 TTGTAATAAG
* * * *
79631530 ATTATTATTAAATATATTTTAATAAAAATAATAA-ATAATTTAATCATATTTTAACATA
1 ATTATTAGT-AATATAATTTAA-AAAAAT-ATAATATAATTTAATAACATTTTAACATA
* * *
79631588 ATTATTATTAAATATAATTTAATAAAATA-ACATATAATTTAATAACATTCTTAATATA
1 ATTATTAGT-AATATAATTTAAAAAAATATA-ATATAATTTAATAACATT-TTAACATA
79631646 ATTATTAGT-ATATGAA-TTAAAAAAATCATAATATA
1 ATTATTAGTAATAT-AATTTAAAAAAAT-ATAATATA
79631681 TAATATTATA
Statistics
Matches: 80, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
55 1 0.01
56 15 0.19
57 27 0.34
58 37 0.46
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (56 bp):
ATTATTAGTAATATAATTTAAAAAAATATAATATAATTTAATAACATTTTAACATA
Found at i:79633845 original size:24 final size:24
Alignment explanation
Indices: 79633818--79633869 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
79633808 GTCATCCTTT
*
79633818 TCAACTTCTTTGAACTCAACAGAC
1 TCAACTTCTTTAAACTCAACAGAC
79633842 TCAACTTCTTTAAACTCAACAGAC
1 TCAACTTCTTTAAACTCAACAGAC
79633866 TCAA
1 TCAA
79633870 ATACAACAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.29, G:0.06, T:0.29
Consensus pattern (24 bp):
TCAACTTCTTTAAACTCAACAGAC
Found at i:79634690 original size:18 final size:18
Alignment explanation
Indices: 79634667--79634702 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
79634657 TTCTCTTTTG
*
79634667 TTTTGGAGTCTGCAATGC
1 TTTTGGAGCCTGCAATGC
79634685 TTTTGGAGCCTGCAATGC
1 TTTTGGAGCCTGCAATGC
79634703 ATTCATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.19, G:0.28, T:0.36
Consensus pattern (18 bp):
TTTTGGAGCCTGCAATGC
Found at i:79635816 original size:59 final size:60
Alignment explanation
Indices: 79635724--79635843 Score: 233
Period size: 59 Copynumber: 2.0 Consensus size: 60
79635714 ATTGAAAGGA
79635724 AGAAAAAAAATGGAGAACTGTTAAATCAAACCAATCCCAAC-AAAAAAACCTGGCAACTT
1 AGAAAAAAAATGGAGAACTGTTAAATCAAACCAATCCCAACAAAAAAAACCTGGCAACTT
79635783 AGAAAAAAAATGGAGAACTGTTAAATCAAACCAATCCCAACAAAAAAAACCTGGCAACTT
1 AGAAAAAAAATGGAGAACTGTTAAATCAAACCAATCCCAACAAAAAAAACCTGGCAACTT
79635843 A
1 A
79635844 AACATCAATC
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
59 41 0.68
60 19 0.32
ACGTcount: A:0.53, C:0.20, G:0.12, T:0.15
Consensus pattern (60 bp):
AGAAAAAAAATGGAGAACTGTTAAATCAAACCAATCCCAACAAAAAAAACCTGGCAACTT
Found at i:79641725 original size:52 final size:51
Alignment explanation
Indices: 79641632--79641730 Score: 119
Period size: 52 Copynumber: 1.9 Consensus size: 51
79641622 AACACAATAT
* * *
79641632 ACAAGTTAGAGTAACACAAAGAATTTCATATCGATCCTATAACTAGAAAGGA
1 ACAAATTAGAGTAACACAAAGAATTTCAAATCAATCCTATAA-TAGAAAGGA
* * *
79641684 ACAAATTAGAGTATCACAAAGATTTTCACAAT-AATCGTATAATAGAA
1 ACAAATTAGAGTAACACAAAGAATTTCA-AATCAATCCTATAATAGAA
79641731 CAAAGGATGT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 5 0.12
52 33 0.82
53 2 0.05
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.25
Consensus pattern (51 bp):
ACAAATTAGAGTAACACAAAGAATTTCAAATCAATCCTATAATAGAAAGGA
Found at i:79642329 original size:27 final size:27
Alignment explanation
Indices: 79642291--79642346 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
79642281 AGAAACGAAT
79642291 CATCAAATTTTTACAAAGCTCGAATCA
1 CATCAAATTTTTACAAAGCTCGAATCA
*
79642318 CATCAATTTTTTACAAAGCTCGAATCA
1 CATCAAATTTTTACAAAGCTCGAATCA
79642345 CA
1 CA
79642347 CCTGAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.30
Consensus pattern (27 bp):
CATCAAATTTTTACAAAGCTCGAATCA
Found at i:79642792 original size:63 final size:64
Alignment explanation
Indices: 79642640--79642801 Score: 188
Period size: 63 Copynumber: 2.6 Consensus size: 64
79642630 CACGGCCTAG
* ** *
79642640 CACACACCCGTGTCTTTGG-CC-ATGTGACTCTAATTTCAAAACAGTAAGTTACACAGCCTGGA
1 CACACACTCGTGTCCATGGCCCGATGTGACTCTAATTCCAAAACAGTAAGTTACACAGCCTGGA
** * * * *
79642702 CACATGCTCGTGTCCCTGGCCCG-TGTGATTCTAATTCCAAAACAGTGAGTTACACGGCCTGGA
1 CACACACTCGTGTCCATGGCCCGATGTGACTCTAATTCCAAAACAGTAAGTTACACAGCCTGGA
**
79642765 CACACACTCGTGTCCATGG-TTGATGTGACTCTAATTC
1 CACACACTCGTGTCCATGGCCCGATGTGACTCTAATTC
79642802 TAAAGTAGAG
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
62 15 0.18
63 67 0.82
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (64 bp):
CACACACTCGTGTCCATGGCCCGATGTGACTCTAATTCCAAAACAGTAAGTTACACAGCCTGGA
Found at i:79642817 original size:63 final size:63
Alignment explanation
Indices: 79642640--79642823 Score: 176
Period size: 63 Copynumber: 2.9 Consensus size: 63
79642630 CACGGCCTAG
* ** * *
79642640 CACACACCCGTGTCTTTGG-CCATGTGACTCTAATTTCAAAACAGTA-AGTTACACAGCCTGGA
1 CACACACTCGTGTCCATGGCCCGTGTGACTCTAATTCCAAAACAG-AGAGTTACACAGCCTGGA
** * * * *
79642702 CACATGCTCGTGTCCCTGGCCCGTGTGATTCTAATTCCAAAACAGTGAGTTACACGGCCTGGA
1 CACACACTCGTGTCCATGGCCCGTGTGACTCTAATTCCAAAACAGAGAGTTACACAGCCTGGA
** * ** *
79642765 CACACACTCGTGTCCATGG-TTGATGTGACTCTAATTCTAAAGTAGAGTGTTACACAGCC
1 CACACACTCGTGTCCATGGCCCG-TGTGACTCTAATTCCAAAACAGAGAGTTACACAGCC
79642824 ATGTGGTTCA
Statistics
Matches: 97, Mismatches: 22, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
62 15 0.15
63 82 0.85
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (63 bp):
CACACACTCGTGTCCATGGCCCGTGTGACTCTAATTCCAAAACAGAGAGTTACACAGCCTGGA
Found at i:79643234 original size:20 final size:20
Alignment explanation
Indices: 79643209--79643247 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
79643199 AATAAAACTT
79643209 TGTTCATCCCAAACTCAAGA
1 TGTTCATCCCAAACTCAAGA
79643229 TGTTCATCCCAAACTCAAG
1 TGTTCATCCCAAACTCAAG
79643248 CAAATAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.31, G:0.10, T:0.26
Consensus pattern (20 bp):
TGTTCATCCCAAACTCAAGA
Found at i:79649272 original size:49 final size:49
Alignment explanation
Indices: 79649170--79649293 Score: 153
Period size: 49 Copynumber: 2.5 Consensus size: 49
79649160 AGATGCCGAC
* * * *
79649170 GCCATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGTGAGGCCGAT
1 GCCATGTCCCAGACA-GGTCTTACACGGGCTCTCATATAGTCAGGCAGAT
*
79649220 GCCATGTCCCAGACAGGTCTTACACGGGCTCTCATCTA-TCAGTGTCAG-T
1 GCCATGTCCCAGACAGGTCTTACACGGGCTCTCATATAGTCAG-G-CAGAT
*
79649269 GCCATGTCCCAGATAGGTCTTACAC
1 GCCATGTCCCAGACAGGTCTTACAC
79649294 TGACACACTA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
48 3 0.05
49 46 0.70
50 17 0.26
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACGGGCTCTCATATAGTCAGGCAGAT
Found at i:79649540 original size:48 final size:48
Alignment explanation
Indices: 79649406--79649528 Score: 183
Period size: 48 Copynumber: 2.6 Consensus size: 48
79649396 CTTAATGGCA
* **
79649406 ATGCATGTCCCATACATGTCTTACACTGGCTTAAATATCTCAAAGTTG
1 ATGCATGTCTCATACATGTCTTACACTGGCTTAAATATCTCAAAGCCG
* ** *
79649454 ATGCATATCTCAGCCATGTCTTACACTGGCTTAAATATCTCGAAGCCG
1 ATGCATGTCTCATACATGTCTTACACTGGCTTAAATATCTCAAAGCCG
79649502 ATGCATGTCTCATACATGTCTTACACT
1 ATGCATGTCTCATACATGTCTTACACT
79649529 AGCGCACATA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 65 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (48 bp):
ATGCATGTCTCATACATGTCTTACACTGGCTTAAATATCTCAAAGCCG
Found at i:79652398 original size:41 final size:40
Alignment explanation
Indices: 79652350--79652462 Score: 133
Period size: 37 Copynumber: 2.9 Consensus size: 40
79652340 ACTTCGAGTT
**
79652350 AATGAGACACTAGGTGTCAATTTATTACTTCGAATATATTC
1 AATGAGACACTAGGTGTCAA-TTATTACTTCGAATATAACC
* * * *
79652391 GATGAGACACTAGGTGCCAA-T-TTACTTCG-GTTTAACC
1 AATGAGACACTAGGTGTCAATTATTACTTCGAATATAACC
79652428 AATGAGACACTAGGTGTCAAATTATTACTTCGAAT
1 AATGAGACACTAGGTGTC-AATTATTACTTCGAAT
79652463 TATCTAATGA
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
37 20 0.34
38 10 0.17
39 2 0.03
40 8 0.14
41 19 0.32
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (40 bp):
AATGAGACACTAGGTGTCAATTATTACTTCGAATATAACC
Found at i:79658394 original size:34 final size:34
Alignment explanation
Indices: 79658356--79658442 Score: 111
Period size: 34 Copynumber: 2.6 Consensus size: 34
79658346 ACAAACACAA
* * *
79658356 ATATCATATTAAAATGTCACATTACCAGAAACAT
1 ATATCATATCAGAATGTCACATTACCAGAAAAAT
* * *
79658390 ATATCAAATCAGAATGTCATATTTCCAGAAAAAT
1 ATATCATATCAGAATGTCACATTACCAGAAAAAT
*
79658424 ATACCATATCAGAATGTCA
1 ATATCATATCAGAATGTCA
79658443 TATCAAATCA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (34 bp):
ATATCATATCAGAATGTCACATTACCAGAAAAAT
Found at i:79658919 original size:14 final size:15
Alignment explanation
Indices: 79658900--79658929 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
79658890 GTTTATTATA
79658900 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
79658914 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
79658929 T
1 T
79658930 CTAAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:79660695 original size:43 final size:44
Alignment explanation
Indices: 79660608--79660720 Score: 137
Period size: 43 Copynumber: 2.6 Consensus size: 44
79660598 TTCGAGCCTC
* *
79660608 GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTATCGGGCTTCG
1 GGCCTAGCAGGC-TTAATGCCGGTGAATAATATTATCGGGCTTCG
79660652 GGCCTAGCAGGCTATAATGCCGGTGAGATAATA-T-T-GGGCTTCG
1 GGCCTAGCAGGCT-TAATGCCGGTGA-ATAATATTATCGGGCTTCG
*
79660695 GGCCTAGCAGGC-GAATGCCGGTGAAT
1 GGCCTAGCAGGCTTAATGCCGGTGAAT
79660721 GAGTTCAGAC
Statistics
Matches: 63, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
40 2 0.03
41 11 0.17
43 21 0.33
44 15 0.24
45 8 0.13
46 6 0.10
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (44 bp):
GGCCTAGCAGGCTTAATGCCGGTGAATAATATTATCGGGCTTCG
Found at i:79661279 original size:20 final size:20
Alignment explanation
Indices: 79661254--79661297 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
79661244 TATGCTTAAG
79661254 TGAAATT-ATAGATATGTAGA
1 TGAAATTGATAGATATGT-GA
79661274 TGAAATTGATAGATATGTGA
1 TGAAATTGATAGATATGTGA
79661294 TGAA
1 TGAA
79661298 TATACATGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.34
Consensus pattern (20 bp):
TGAAATTGATAGATATGTGA
Found at i:79662796 original size:32 final size:32
Alignment explanation
Indices: 79662728--79662789 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
79662718 AAAATAAGCT
* * * *
79662728 CACACGGCCTACCTAACCTACTCGTGTGATCC
1 CACACAGCCTACCTAAACTACCCGTGTAATCC
*
79662760 CACACAGCCTACCTAAATTACCCGTGTAAT
1 CACACAGCCTACCTAAACTACCCGTGTAAT
79662790 TGCACACGCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.27, C:0.37, G:0.13, T:0.23
Consensus pattern (32 bp):
CACACAGCCTACCTAAACTACCCGTGTAATCC
Found at i:79671339 original size:13 final size:12
Alignment explanation
Indices: 79671308--79671364 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
79671298 AATGTGAAAC
*
79671308 GAAAAAGAAATT
1 GAAAAAGAAGTT
79671320 GAAAAAGAAGTT
1 GAAAAAGAAGTT
*
79671332 GAAGAAAGAAG-A
1 GAA-AAAGAAGTT
*
79671344 GAAAATG-AGTT
1 GAAAAAGAAGTT
79671355 AGAAAAAGAA
1 -GAAAAAGAA
79671365 ACAAAAGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
10 2 0.06
11 3 0.08
12 23 0.64
13 8 0.22
ACGTcount: A:0.63, C:0.00, G:0.25, T:0.12
Consensus pattern (12 bp):
GAAAAAGAAGTT
Found at i:79675297 original size:16 final size:16
Alignment explanation
Indices: 79675276--79675317 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
79675266 ATGATGATTT
79675276 TTTTTAATATTAAATA
1 TTTTTAATATTAAATA
*
79675292 TTTTTAAGATTAAATA
1 TTTTTAATATTAAATA
* *
79675308 ATATTAATAT
1 TTTTTAATAT
79675318 AACCAATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TTTTTAATATTAAATA
Found at i:79675514 original size:31 final size:31
Alignment explanation
Indices: 79675479--79675548 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
79675469 ATTACAAAAT
* *
79675479 AGTCATTGAATTATTTGAAAA-TTTTCATTTA
1 AGTCATTGAACTA-TTCAAAAGTTTTCATTTA
* *
79675510 AGTCATTAAACTATTCAAAAGTTTTTATTTA
1 AGTCATTGAACTATTCAAAAGTTTTCATTTA
79675541 AGTCATTG
1 AGTCATTG
79675549 GGCTATTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 6 0.18
31 27 0.82
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.46
Consensus pattern (31 bp):
AGTCATTGAACTATTCAAAAGTTTTCATTTA
Found at i:79677802 original size:2 final size:2
Alignment explanation
Indices: 79677795--79677821 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
79677785 AAATTTAAAA
79677795 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
79677822 CTAAAACTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:79678898 original size:2 final size:2
Alignment explanation
Indices: 79678891--79678920 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
79678881 AAGAATGATT
79678891 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
79678921 AATGAGGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:79681145 original size:81 final size:81
Alignment explanation
Indices: 79681049--79681210 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
79681039 ATTGCCTTCG
79681049 ATGTCGCGACATCGGACTCTGATGTTGCAACACTGCAGGCATGTGTTACAACCAACTCCCTGCGC
1 ATGTCGCGACATCGGACTCTGATGTTGCAACACTGCAGGCATGTGTTACAACCAACTCCCTGCGC
79681114 AACCTAAAAATTCCTA
66 AACCTAAAAATTCCTA
79681130 ATGTCGCGACATCGGACTCTGATGTTGCAACACTGCAGGCATGTGTTACAACCAACTCCCTGCGC
1 ATGTCGCGACATCGGACTCTGATGTTGCAACACTGCAGGCATGTGTTACAACCAACTCCCTGCGC
79681195 AACCTAAAAATTCCTA
66 AACCTAAAAATTCCTA
79681211 CATGCTTTAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (81 bp):
ATGTCGCGACATCGGACTCTGATGTTGCAACACTGCAGGCATGTGTTACAACCAACTCCCTGCGC
AACCTAAAAATTCCTA
Found at i:79687485 original size:12 final size:11
Alignment explanation
Indices: 79687466--79687496 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
79687456 TGTATAAAAC
79687466 TTATTTTATTA
1 TTATTTTATTA
79687477 TTAATTTTATTA
1 TT-ATTTTATTA
79687489 TTATTTTA
1 TTATTTTA
79687497 AAGGCATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:79687513 original size:30 final size:30
Alignment explanation
Indices: 79687477--79687535 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
79687467 TATTTTATTA
79687477 TTAATTTTATTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
79687507 TTAATTTTATTATTATTTTAGAGGTATTT
1 TTAATTTTATTATTATTTTAAAGGCATTT
79687536 TCTTGTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:79691929 original size:40 final size:39
Alignment explanation
Indices: 79691879--79691961 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 39
79691869 AAATCCAATC
*
79691879 ACCACCACAAAGCATGCAGGAGTTTAAGCCCAGATATAAA
1 ACCACCACAAAGCATGCAGGACTTT-AGCCCAGATATAAA
* * * *
79691919 ACCAGCACAAAGCCTGCAGGACTTTAGCCCGGATATAAC
1 ACCACCACAAAGCATGCAGGACTTTAGCCCAGATATAAA
79691958 ACCA
1 ACCA
79691962 ACACGAATGC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
39 16 0.42
40 22 0.58
ACGTcount: A:0.39, C:0.29, G:0.18, T:0.14
Consensus pattern (39 bp):
ACCACCACAAAGCATGCAGGACTTTAGCCCAGATATAAA
Found at i:79691985 original size:39 final size:39
Alignment explanation
Indices: 79691905--79692073 Score: 259
Period size: 39 Copynumber: 4.3 Consensus size: 39
79691895 CAGGAGTTTA
* * * * *
79691905 AGCCCAGATATAAAACCAGCAC-AAAGCCTGCAGGACTTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC-TT
*
79691944 AGCCCGGATATAACACCAACACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
79691983 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
79692022 AGCCCGGATATAACACTAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
79692061 AGCCCGGATATAA
1 AGCCCGGATATAA
79692074 TTCTCCATTA
Statistics
Matches: 121, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 110 0.91
40 11 0.09
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
Found at i:79703937 original size:19 final size:19
Alignment explanation
Indices: 79703908--79703960 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
79703898 AGTTGAGATG
79703908 GTTTCAATCAAGTTAAAACT
1 GTTT-AATCAAGTTAAAACT
* * *
79703928 GTTTAATCAAATTTAAATT
1 GTTTAATCAAGTTAAAACT
79703947 GTCTTAATACAAGT
1 GT-TTAAT-CAAGT
79703961 CAGTATGGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 14 0.52
20 9 0.33
21 4 0.15
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (19 bp):
GTTTAATCAAGTTAAAACT
Found at i:79705338 original size:40 final size:40
Alignment explanation
Indices: 79705316--79705508 Score: 244
Period size: 40 Copynumber: 5.1 Consensus size: 40
79705306 AGCCCAGATG
*
79705316 TAACAACCAGCACAAATGCCTTCGGGACTTAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
* *
79705356 TAGCAACCAGCATGAATGCCTTCGGGACTTAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
*
79705396 TAAAAACCAGCACGAATGCCTTCGGG---------GG-AA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
* *
79705426 TAACAACCAGCACAAATGCCTTCGGGACTTAACCTGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
* *
79705466 TAACAACCAGCATGAATGCCTTCGGGACTTAACCCGGATA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
79705506 TAA
1 TAA
79705509 TCCTCAATTG
Statistics
Matches: 131, Mismatches: 12, Indels: 20
0.80 0.07 0.12
Matches are distributed among these distances:
30 26 0.20
31 2 0.02
39 2 0.02
40 101 0.77
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.17
Consensus pattern (40 bp):
TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
Found at i:79705434 original size:30 final size:30
Alignment explanation
Indices: 79705394--79705451 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
79705384 TTAACCCGGA
*
79705394 AATAAAAACCAGCACGAATGCCTTCGGGGG
1 AATAAAAACCAGCACAAATGCCTTCGGGGG
*
79705424 AATAACAACCAGCACAAATGCCTTCGGG
1 AATAAAAACCAGCACAAATGCCTTCGGG
79705452 ACTTAACCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.26, G:0.22, T:0.14
Consensus pattern (30 bp):
AATAAAAACCAGCACAAATGCCTTCGGGGG
Found at i:79705474 original size:70 final size:70
Alignment explanation
Indices: 79705354--79705491 Score: 222
Period size: 70 Copynumber: 2.0 Consensus size: 70
79705344 TTAACCCGGA
* **
79705354 AATAGCAACCAGCATGAATGCCTTCGGGACTTAACCCGGAAATAAAAACCAGCACGAATGCCTTC
1 AATAACAACCAGCACAAATGCCTTCGGGACTTAACCCGGAAATAAAAACCAGCACGAATGCCTTC
79705419 GGGGG
66 GGGGG
* * *
79705424 AATAACAACCAGCACAAATGCCTTCGGGACTTAACCTGGAAATAACAACCAGCATGAATGCCTTC
1 AATAACAACCAGCACAAATGCCTTCGGGACTTAACCCGGAAATAAAAACCAGCACGAATGCCTTC
79705489 GGG
66 GGG
79705492 ACTTAACCCG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.17
Consensus pattern (70 bp):
AATAACAACCAGCACAAATGCCTTCGGGACTTAACCCGGAAATAAAAACCAGCACGAATGCCTTC
GGGGG
Found at i:79713380 original size:40 final size:40
Alignment explanation
Indices: 79713336--79713520 Score: 262
Period size: 40 Copynumber: 4.6 Consensus size: 40
79713326 AACCCAATTA
* * ** **
79713336 CCTTCGGGATTTAGCCCGGATGTAACAACCAGCACAAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAATG
*
79713376 CCTTCGGGACTTAACCCGGAAATAGCAACCAGCATGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAATG
* * *
79713416 CCTTCGGGAATTAACCCGGGAATAACAACTAGCATGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAATG
*
79713456 CCTTCGGAACTTAACCCGGAAATAACAACCAGCATGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAATG
*
79713496 CCTTCGGGACTTAACCCGGATATAA
1 CCTTCGGGACTTAACCCGGAAATAA
79713521 TCTTCAATTG
Statistics
Matches: 128, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 128 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.19
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAATG
Found at i:79716871 original size:25 final size:25
Alignment explanation
Indices: 79716843--79716900 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
79716833 CTACCTATAG
*
79716843 TAGTTTCATAATATACTATCCATAA
1 TAGTTTCAAAATATACTATCCATAA
79716868 TAGTTTCAAAATATACTATCCATAA
1 TAGTTTCAAAATATACTATCCATAA
79716893 TAGTTTCA
1 TAGTTTCA
79716901 GTTTAAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (25 bp):
TAGTTTCAAAATATACTATCCATAA
Found at i:79726406 original size:44 final size:47
Alignment explanation
Indices: 79726285--79726552 Score: 144
Period size: 49 Copynumber: 5.6 Consensus size: 47
79726275 TGATGTGTGT
*
79726285 GCTAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCAAGATATGCAA
1 GCTAGTGTAAGACCTGT-TTGGACATGGCATCAGCCTCAAGATATG-AA
* * * *
79726334 GCTAGTGTAAGACCTGTCTAGGATATGGCATCAG-CTTAAG-T-TG-T
1 GCTAGTGTAAGACCTGT-TTGGACATGGCATCAGCCTCAAGATATGAA
* *
79726378 G-TCAGTGTAAGACCTGTTTGGCACATGGCATC-GACAC-AGATAAGTGAGA
1 GCT-AGTGTAAGACCTGTTTGG-ACATGGCATCAGCCTCAAGAT-A-TGA-A
* * * * *
79726427 GCCAGTGTACGACCTGTCTGGGACATGGCATCGGCCTCGATG-TATGGAA
1 GCTAGTGTAAGACCTGT-TTGGACATGGCATCAGCCTC-AAGATAT-GAA
* * * * *
79726476 G-TCATTGTAAGACCTGTCTGGGACATGGCATCA-ACT-TAGATGTGAGA
1 GCT-AGTGTAAGACCTGT-TTGGACATGGCATCAGCCTCAAGATATGA-A
* *
79726523 GCCAGTATAAGACCATGTTTGGAACATGGC
1 GCTAGTGTAAGACC-TGTTTGG-ACATGGC
79726553 GTCGACATCG
Statistics
Matches: 171, Mismatches: 27, Indels: 43
0.71 0.11 0.18
Matches are distributed among these distances:
43 7 0.04
44 26 0.15
46 5 0.03
47 19 0.11
48 17 0.10
49 86 0.50
50 9 0.05
51 1 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCTGTTTGGACATGGCATCAGCCTCAAGATATGAA
Found at i:79726455 original size:93 final size:93
Alignment explanation
Indices: 79726288--79726508 Score: 223
Period size: 93 Copynumber: 2.3 Consensus size: 93
79726278 TGTGTGTGCT
* * * *
79726288 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCAAGATATGCAAGCTAGTGTAAGACCTGTCT
1 AGTGTAAGACCTGTCTGGCACATGGCATCAGACACAAGATATGCAAGCCAGTGTAAGACCTGTCT
*
79726353 AGGATATGGCATCAGCTTAAGTTGTGTC
66 AGGACATGGCATCAGCTTAAGTTGTGTC
* *
79726381 AGTGTAAGACCTGTTTGGCACATGGCATC-GACAC-AGATAAGTG-AGAGCCAGTGTACGACCTG
1 AGTGTAAGACCTGTCTGGCACATGGCATCAGACACAAGAT-A-TGCA-AGCCAGTGTAAGACCTG
* * * * *
79726443 TCTGGGACATGGCATCGGCCTCGATGTATGGAAGTC
63 TCTAGGACATGGCATCAG-CT-TAAGT-T-G-TGTC
* *
79726479 ATTGTAAGACCTGTCTGGGACATGGCATCA
1 AGTGTAAGACCTGTCTGGCACATGGCATCA
79726509 ACTTAGATGT
Statistics
Matches: 104, Mismatches: 15, Indels: 12
0.79 0.11 0.09
Matches are distributed among these distances:
91 4 0.04
92 5 0.05
93 59 0.57
94 2 0.02
95 3 0.03
96 1 0.01
97 1 0.01
98 29 0.28
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (93 bp):
AGTGTAAGACCTGTCTGGCACATGGCATCAGACACAAGATATGCAAGCCAGTGTAAGACCTGTCT
AGGACATGGCATCAGCTTAAGTTGTGTC
Found at i:79726490 original size:49 final size:49
Alignment explanation
Indices: 79726288--79726508 Score: 208
Period size: 49 Copynumber: 4.6 Consensus size: 49
79726278 TGTGTGTGCT
*
79726288 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCAAGATATGCAAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCAAGATATGGAAGTC
* * * *
79726336 TAGTGTAAGACCTGTCTAGGATATGGCATCAG-CTTAAG-T-T-G-TGTC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCAAGATATGGAAGTC
* * * * * *
79726381 AGTGTAAGACCTGTTTGGCACATGGCATC-GACAC-AGATAAGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCAAGATATG-GA-AGTC
* * *
79726430 AGTGTACGACCTGTCTGGGACATGGCATCGGCCTCGATG-TATGGAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTC-AAGATATGGAAGTC
*
79726479 ATTGTAAGACCTGTCTGGGACATGGCATCA
1 AGTGTAAGACCTGTCTGGGACATGGCATCA
79726509 ACTTAGATGT
Statistics
Matches: 136, Mismatches: 25, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
43 3 0.02
44 28 0.21
45 1 0.01
46 1 0.01
47 2 0.01
48 5 0.04
49 87 0.64
50 5 0.04
51 3 0.02
52 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCAAGATATGGAAGTC
Found at i:79732336 original size:21 final size:20
Alignment explanation
Indices: 79732306--79732345 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
79732296 GAAATTTTAG
* *
79732306 CAGCAATGAGGGGAAAGAAT
1 CAGCAATGAGAGAAAAGAAT
79732326 CAGCAAATGAGAGAAAAGAA
1 CAGC-AATGAGAGAAAAGAA
79732346 GAAGAAGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.53, C:0.10, G:0.30, T:0.07
Consensus pattern (20 bp):
CAGCAATGAGAGAAAAGAAT
Found at i:79734931 original size:23 final size:24
Alignment explanation
Indices: 79734872--79734989 Score: 129
Period size: 23 Copynumber: 4.9 Consensus size: 24
79734862 CTGATATATG
79734872 AGCTCA-TAAGAGCTTACTGTTCTC
1 AGCTCAGT-AGAGCTTACTGTTCTC
79734896 AGCTC-GTATGAGCTTACTGTTCT-
1 AGCTCAGTA-GAGCTTACTGTTCTC
*
79734919 AGCTC-GTCAGAGCTTACCGTT-TC
1 AGCTCAGT-AGAGCTTACTGTTCTC
*
79734942 AGCTCAATAGAGCTTACTGTTCATC
1 AGCTCAGTAGAGCTTACTGTTC-TC
*
79734967 AGCTCAGGAGAAGCTTACTGTTC
1 AGCTCAGTAG-AGCTTACTGTTC
79734990 ATAGCTTGAA
Statistics
Matches: 81, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
22 1 0.01
23 36 0.44
24 22 0.27
25 10 0.12
26 12 0.15
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (24 bp):
AGCTCAGTAGAGCTTACTGTTCTC
Found at i:79739032 original size:28 final size:28
Alignment explanation
Indices: 79738951--79739037 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
79738941 ATTAGGACAT
**
79738951 TTTAGGCACT-AGTTGCTAGTGATTATAG
1 TTTAGGCACTCAG-TGCCGGTGATTATAG
* *
79738979 TTTCAGGTACTTC-GTACCGGTG-TTATAG
1 TTT-AGGCAC-TCAGTGCCGGTGATTATAG
79739007 TTTAGGCACTCAGTGCCGGTGATTATAG
1 TTTAGGCACTCAGTGCCGGTGATTATAG
79739035 TTT
1 TTT
79739038 CAAGTACTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
26 2 0.04
27 13 0.27
28 21 0.44
29 10 0.21
30 2 0.04
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (28 bp):
TTTAGGCACTCAGTGCCGGTGATTATAG
Found at i:79741968 original size:38 final size:38
Alignment explanation
Indices: 79741921--79742014 Score: 179
Period size: 38 Copynumber: 2.5 Consensus size: 38
79741911 TATGGTATAT
79741921 ATAAAAGTCCACTGGTATCGATATCTTTAGCTCCAACG
1 ATAAAAGTCCACTGGTATCGATATCTTTAGCTCCAACG
*
79741959 ATAAAAGTCCACTGGTATCGATATCTTTAGCTCCAACT
1 ATAAAAGTCCACTGGTATCGATATCTTTAGCTCCAACG
79741997 ATAAAAGTCCACTGGTAT
1 ATAAAAGTCCACTGGTAT
79742015 AGTATTTTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 55 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (38 bp):
ATAAAAGTCCACTGGTATCGATATCTTTAGCTCCAACG
Found at i:79743722 original size:13 final size:13
Alignment explanation
Indices: 79743706--79743748 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
79743696 ATTTCAATTT
79743706 TATTTTAATAATA
1 TATTTTAATAATA
*
79743719 TATTTTAAAAATAA
1 TATTTTAATAAT-A
79743733 TAATTTTAAATAATA
1 T-ATTTT-AATAATA
79743748 T
1 T
79743749 TATTCACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 11 0.44
14 2 0.08
15 7 0.28
16 5 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TATTTTAATAATA
Done.